Atomic matter is created by the collisions in a large hadron collider. Notice that there is one in ‘Terminator 3’. The meeting of future Aaron and Abe(1) leads to a permanent Abe(2). The clash of Aaron(2) and Aaron(3) leads to the exit of a permanent Aaron(2). (Of course, with the super-sized box, he has opportunity to return at some point after the events shown in the film.) It seems anytime a time-traveler intersects his own 'double', a new history is created, often with unwanted results.
What will be the effect of Primer on future time travel films? Will we gain more intelligent scripts, skillfully avoiding the errors and major flaws that are so prevalent in many films? Will writers look to imitate non-linear dialogue? It is hard to build a time travel story without intersecting some of the ideas that have been expressed previously. It is not the purpose of a film to teach or influence others. It is just the most beneficial side effect. Some will imitate Primer, while others may boldly venture into new directions.(Edit: Some people like the ideas expressed in Looper-2012 despite its borrowed influences from Frequency and Deja Vu.)
It is easy to see the down-side of a complex plot. Now you can begin to understand why so many critics praised Primer, but admitted that they understood almost nothing at all. For this, some of us are glad. We need more enigmas like Primer. You can only work on Sudoku puzzles for so long.
I would love to see a different storyline in ‘Terminator 3’. I prefer to have Sarah Connor alive. She could meet a young bodybuilder who looks like the T-101 from the first film. He is falsely accused and convicted of the crimes committed by the first T-101. After his execution, the Skynet technicians use his skin to create the first T-101 with human skin, which in turn is the cyborg that is sent back to 1984. You could even have Michael J. Fox working on the time machine for an added touch to a complete cycle in the time paradox.